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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacattgtgcagatatttaaagaatgttttagaagtttcttgtaaattttacgtgttgagccagtagagtccttgtgtgcaatccatatttctgaccacggaactggaattctgcagGTGGACTTGGTGAGGAGGCATTGTTTTCCCGTGTACTGGAATGGAGATAATCGGCGTGTGCTTAGAGGTCACTGGTTTGCTCGTAAAGGTGGCCTAGACT

Basic information

species Arabidopsis thaliana
transcript AT1G31480.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G31480.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G318860_T02 (Zea mays), 3'ss of exon 3
gtacattgtgcagatatttaaagaatgttttagaagttt-cttgtaaattttacgtgttgagccagtagagtccttgtgtgcaatccatatttctgaccacggaactggaattctgcagGTGGACTTGGTGAGGAGGCATTGTTTTCCCGTGTACTGGAATGGAGATAATCGGCGTGTGCTTAGAGGTCACTGGTTTGCTCGTAAAGGTGGCCTAGACT
               |  |  ||    |  | | | | | | | | |   ||   |  |    |||||   |   |  ||| |||   |  || | |  || |  |||   |||| ||||| || ||| ||||| ||||||| || || |||||||||||||| || || ||||||||  | ||||| |||||||||||||| ||||||||| | ||||
--------------caacttcagctcatacttgcattctacctattatcattgactacta--tcagtatgctatcta-gtg-aatttgttattgtcataacagc-ctgctgttcttcagGTTGATTTGATGAGGCGGCATTGCTTCCCTGTGTACTGGAATGGGGAAAACCGGCGTGTCTTGAGAGGCCACTGGTTTGCTCGCAAAGGTGGCGTCGACT

upper sequence: AT1G31480.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G023335_T01 (Zea mays), 3'ss of exon 5
-------------------gtacattgtg-cagatatttaaagaatgttttagaagtttcttgtaa--attttacgtgttgagccagtagagtccttgtgtgcaatccat-------atttctgaccacggaactggaattctgcagGTGGACTTGGTGAGGAGGCATTGTTTTCCCGTGTACTGGAATGGAGATAATCGGCGTGTGCTTAGAGGTCACTGGTTTGCTCGTAAAGGTGGCCTAGACT
                   ||||  | |  || |     || ||||  | ||    ||  |   ||  ||| |||   ||      |   | ||   || ||| ||| |         | | |   ||   | ||    |||||||||| || ||| ||||| ||||||| || || ||||||||||| || || ||  |||||||  | ||||| |||||||| ||||| ||||||||  | || |
gtctgtaatctcttctctagtacgctctatcataaccggaatgaatcgtgtatggattattgagaagcattctacccattatcattgattactctcagtatgctatctagtgagttggtcttttcgcaacaacctactgttctgcagGTTGATTTGATGAGGCGGCATTGCTTCCCTGTGTACTGGAACGGTGAAAACAGGCGTGTCTTGAGAGGCCACTGGTTCGCTCGCAAAGGTGGTGTTGATT
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|116451033|gb|EG493625.1|EG493625
EST:     AAGTTGAAGAGGAGCGAGTAGGTGTACCTGTTAAGGGTGGGCTATATGAG                         GTGGACTTGGTGAGGAGGCATTGTTTTCCCGTGTACTGGAATGGAGATAAT
genomic: AAGTTGAAGAGGAGCGAGTAGGTGTACCTGTTAAGGGTGGGCTATATGAGgtacattgtg ... aattctgcagGTGGACTTGGTGAGGAGGCATTGTTTTCCCGTGTACTGGAATGGAGATAAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtagagtccttgtgtgcaatccatatttctgaccacggaactggaattctgcagGTGGACTTGGTGAGGAGGCATTGTTTTCCCGTGTACTGGAATGGAGATAATCGGCGTGTGCTTAGAGGTCACTGGTTTGCTCGTAAAGGTGGCCTAGACT
                           ttctgac  putative branch site (score: 2)
                       atatttct  TA-rich tract